PTPN5 — 86 ClinVar variants
All ClinVar germline PTPN5 variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 81 flagged for review →
5 Likely benign · 81 Uncertain significance
Full PTPN5 gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions⚑ Evidence disagreements 81
Variants where the independent computational evidence doesn't line up with the clinical picture — a QC signal for a second look, not a reclassification.
Predictors lean, ClinVar uncertain 63
ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.
- PTPN5 p.Glu276Lys Uncertain significance Multiple submitters
- PTPN5 p.Ala116Thr Uncertain significance Single submitter
- PTPN5 p.Ala15Thr Uncertain significance Single submitter
- PTPN5 p.Ala281Thr Uncertain significance Single submitter
- PTPN5 p.Ala46Val Uncertain significance Single submitter
- PTPN5 p.Ala77Ser Uncertain significance Single submitter
- PTPN5 p.Arg182His Uncertain significance Single submitter
- PTPN5 p.Arg275His Uncertain significance Single submitter
- PTPN5 p.Arg283Cys Uncertain significance Single submitter
- PTPN5 p.Arg324Gln Uncertain significance Single submitter
- PTPN5 p.Arg476Trp Uncertain significance Single submitter
- PTPN5 p.Arg532His Uncertain significance Single submitter
- PTPN5 p.Arg535Ser Uncertain significance Single submitter
- PTPN5 p.Asn118Ser Uncertain significance Single submitter
- PTPN5 p.Asp209Asn Uncertain significance Single submitter
- PTPN5 p.Asp420Asn Uncertain significance Single submitter
- PTPN5 p.Asp67Tyr Uncertain significance Single submitter
- PTPN5 p.Gln129His Uncertain significance Single submitter
- PTPN5 p.Gln53Leu Uncertain significance Single submitter
- PTPN5 p.Gln558Arg Uncertain significance Single submitter
- PTPN5 p.Glu131Lys Uncertain significance Single submitter
- PTPN5 p.Glu19Lys Uncertain significance Single submitter
- PTPN5 p.Glu213Asp Uncertain significance Single submitter
- PTPN5 p.Glu292Lys Uncertain significance Single submitter
- PTPN5 p.Glu45Lys Uncertain significance Single submitter
- PTPN5 p.Glu477Gln Uncertain significance Single submitter
- PTPN5 p.Glu480Ala Uncertain significance Single submitter
- PTPN5 p.Glu9Val Uncertain significance Single submitter
- PTPN5 p.Gly107Ser Uncertain significance Single submitter
- PTPN5 p.Gly262Asp Uncertain significance Single submitter
- PTPN5 p.Gly445Glu Uncertain significance Single submitter
- PTPN5 p.Gly537Ser Uncertain significance Single submitter
- PTPN5 p.His164Gln Uncertain significance Single submitter
- PTPN5 p.Ile395Phe Uncertain significance Single submitter
- PTPN5 p.Ile424Asn Uncertain significance Single submitter
- PTPN5 p.Leu123Ser Uncertain significance Single submitter
- PTPN5 p.Leu165Phe Uncertain significance Single submitter
- PTPN5 p.Leu266Phe Uncertain significance Single submitter
- PTPN5 p.Lys367Glu Uncertain significance Single submitter
- PTPN5 p.Phe150Cys Uncertain significance Single submitter
- PTPN5 p.Pro177Ser Uncertain significance Single submitter
- PTPN5 p.Pro178His Uncertain significance Single submitter
- PTPN5 p.Pro229Leu Uncertain significance Single submitter
- PTPN5 p.Pro32Leu Uncertain significance Single submitter
- PTPN5 p.Pro349Ser Uncertain significance Single submitter
- PTPN5 p.Pro349Thr Uncertain significance Single submitter
- PTPN5 p.Pro35Thr Uncertain significance Single submitter
- PTPN5 p.Pro60Leu Uncertain significance Single submitter
- PTPN5 p.Pro60Ser Uncertain significance Single submitter
- PTPN5 p.Pro68Leu Uncertain significance Single submitter
- PTPN5 p.Ser378Thr Uncertain significance Single submitter
- PTPN5 p.Ser441Cys Uncertain significance Single submitter
- PTPN5 p.Ser441Pro Uncertain significance Single submitter
- PTPN5 p.Ser8Asn Uncertain significance Single submitter
- PTPN5 p.Thr140Met Uncertain significance Single submitter
- PTPN5 p.Thr140Ser Uncertain significance Single submitter
- PTPN5 p.Thr168Arg Uncertain significance Single submitter
- PTPN5 p.Thr230Ile Uncertain significance Single submitter
- PTPN5 p.Thr399Asn Uncertain significance Single submitter
- PTPN5 p.Trp141Arg Uncertain significance Single submitter
- PTPN5 p.Tyr108Cys Uncertain significance Single submitter
- PTPN5 p.Val211Met Uncertain significance Single submitter
- PTPN5 p.Val494Ile Uncertain significance Single submitter
Predictors split 18
The independent predictors disagree with each other — read with care.
- PTPN5 p.Ala468Val Uncertain significance Single submitter
- PTPN5 p.Arg270Cys Uncertain significance Single submitter
- PTPN5 p.Glu406Lys Uncertain significance Single submitter
- PTPN5 p.Glu410Asp Uncertain significance Single submitter
- PTPN5 p.Glu556Lys Uncertain significance Single submitter
- PTPN5 p.Gly244Ser Uncertain significance Single submitter
- PTPN5 p.Gly321Glu Uncertain significance Single submitter
- PTPN5 p.Gly364Arg Uncertain significance Single submitter
- PTPN5 p.Gly421Asp Likely benign Single submitter
- PTPN5 p.Gly421Ser Uncertain significance Single submitter
- PTPN5 p.Gly520Ser Uncertain significance Single submitter
- PTPN5 p.Ile354Val Uncertain significance Single submitter
- PTPN5 p.Met309Val Uncertain significance Single submitter
- PTPN5 p.Pro320Leu Uncertain significance Single submitter
- PTPN5 p.Thr409Ile Uncertain significance Single submitter
- PTPN5 p.Tyr362Cys Uncertain significance Single submitter
- PTPN5 p.Val377Ala Uncertain significance Single submitter
- PTPN5 p.Val475Leu Uncertain significance Single submitter
All PTPN5 variants
Likely benign 5
- p.Ala77Thr Single submitter
- p.Gln427Arg Single submitter
- p.Gly421Asp Single submitter ⚠
- p.Val120Ile Single submitter
- p.Val158Ile Single submitter
Uncertain significance 81
- p.Glu276Lys Multiple submitters ⚠
- p.Ala116Thr Single submitter ⚠
- p.Ala15Thr Single submitter ⚠
- p.Ala281Thr Single submitter ⚠
- p.Ala468Val Single submitter ⚠
- p.Ala46Val Single submitter ⚠
- p.Ala77Ser Single submitter ⚠
- p.Arg182His Single submitter ⚠
- p.Arg270Cys Single submitter ⚠
- p.Arg275His Single submitter ⚠
- p.Arg283Cys Single submitter ⚠
- p.Arg324Gln Single submitter ⚠
- p.Arg476Trp Single submitter ⚠
- p.Arg532His Single submitter ⚠
- p.Arg535Ser Single submitter ⚠
- p.Asn118Ser Single submitter ⚠
- p.Asp209Asn Single submitter ⚠
- p.Asp420Asn Single submitter ⚠
- p.Asp67Tyr Single submitter ⚠
- p.Gln129His Single submitter ⚠
- p.Gln53Leu Single submitter ⚠
- p.Gln558Arg Single submitter ⚠
- p.Glu131Lys Single submitter ⚠
- p.Glu19Lys Single submitter ⚠
- p.Glu213Asp Single submitter ⚠
- p.Glu292Lys Single submitter ⚠
- p.Glu406Lys Single submitter ⚠
- p.Glu410Asp Single submitter ⚠
- p.Glu45Lys Single submitter ⚠
- p.Glu477Gln Single submitter ⚠
- p.Glu480Ala Single submitter ⚠
- p.Glu556Lys Single submitter ⚠
- p.Glu9Val Single submitter ⚠
- p.Gly107Ser Single submitter ⚠
- p.Gly244Ser Single submitter ⚠
- p.Gly262Asp Single submitter ⚠
- p.Gly321Glu Single submitter ⚠
- p.Gly364Arg Single submitter ⚠
- p.Gly421Ser Single submitter ⚠
- p.Gly445Glu Single submitter ⚠
- p.Gly520Ser Single submitter ⚠
- p.Gly537Ser Single submitter ⚠
- p.His164Gln Single submitter ⚠
- p.Ile354Val Single submitter ⚠
- p.Ile395Phe Single submitter ⚠
- p.Ile424Asn Single submitter ⚠
- p.Ile507Leu Single submitter
- p.Leu123Ser Single submitter ⚠
- p.Leu165Phe Single submitter ⚠
- p.Leu266Phe Single submitter ⚠
- p.Lys367Glu Single submitter ⚠
- p.Met309Val Single submitter ⚠
- p.Phe150Cys Single submitter ⚠
- p.Pro177Ser Single submitter ⚠
- p.Pro178His Single submitter ⚠
- p.Pro229Leu Single submitter ⚠
- p.Pro320Leu Single submitter ⚠
- p.Pro32Leu Single submitter ⚠
- p.Pro349Ser Single submitter ⚠
- p.Pro349Thr Single submitter ⚠
- p.Pro35Thr Single submitter ⚠
- p.Pro60Leu Single submitter ⚠
- p.Pro60Ser Single submitter ⚠
- p.Pro68Leu Single submitter ⚠
- p.Ser378Thr Single submitter ⚠
- p.Ser441Cys Single submitter ⚠
- p.Ser441Pro Single submitter ⚠
- p.Ser8Asn Single submitter ⚠
- p.Thr140Met Single submitter ⚠
- p.Thr140Ser Single submitter ⚠
- p.Thr168Arg Single submitter ⚠
- p.Thr230Ile Single submitter ⚠
- p.Thr399Asn Single submitter ⚠
- p.Thr409Ile Single submitter ⚠
- p.Trp141Arg Single submitter ⚠
- p.Tyr108Cys Single submitter ⚠
- p.Tyr362Cys Single submitter ⚠
- p.Val211Met Single submitter ⚠
- p.Val377Ala Single submitter ⚠
- p.Val475Leu Single submitter ⚠
- p.Val494Ile Single submitter ⚠